Publications

2017

Mack S, Coassin S, Rueedi R, Yousri NA, Seppälä I, Gieger C, Schönherr S, Forer L, Erhart G, Marques-Vidal P, Ried J, Waeber G, Bergmann S, Dähnhardt D, Stöckl A, Raitakari OT, Kähönen M, Peters A, Meitinger T, Strauch K, Kedenko L, Paulweber B, Lehtimäki T, Hunt SC, Vollenweider P, Lamina C, Kronenberg F (2017). A genome-wide association meta-analysis on lipoprotein(a) concentrations adjusted for apolipoprotein(a) isoforms. J Lipid Res, DOI: 10.1194/jlr.M076232

Coassin S, Erhart G, Weissensteiner H, Eca Guimarães de Araújo M, Lamina C, Schönherr S, Forer L, Haun M, Losso JL, Köttgen A, Schmidt K, Utermann G, Peters A, Gieger C, Strauch K, Finkenstedt A, Bale R, Zoller H, Paulweber B, Eckardt KU, Hüttenhofer A, Huber LA, Kronenberg F (2017). A novel but frequent variant in LPA KIV-2 is associated with a pronounced Lp(a) and cardiovascular risk reduction. Eur Heart J., DOI: 10.1093/eurheartj/ehx174.

Taliun D, Chothani S, Schönherr S, Forer L, Boehnke M, Abecasis GR, Wang C (2017). LASER server: ancestry tracing with genotypes or sequence reads. Bioinformatics, DOI: 10.1093/bioinformatics/btx075.

2016

Loh PR, Danecek P, Palamara PF, Fuchsberger C, Reshef YA, Finucane HK, Schoenherr S, Forer L, McCarthy S, Abecasis GR, Durbin R, Proce AL (2016). Reference-based phasing using the Haplotype Reference Consortium panel. Nature Genetics, 10.1038/ng.3679.

Das S, Forer L, Schönherr S, Sidore C, Locke AE, Kwong A, Vrieze SI, Chew EY, Levy S, McGue M, Schlessinger S, Stambolian D, Loh PR, Iacono WG, Swaroop A, Scott LJ, Cucca F, Kronenberg F, Boehnke M, Abecasis G Fuchsberger C (2016). Next generation genotype imputation service and methods. Nature Genetics. DOI: 10.1038/ng.3656

McCarthy S, Das S, Kretzschmar W, Delaneau O, Wood AR, Teumer A, Kang HM, Fuchsberger C, Danecek P, Sharp K, Luo Y, Sidore C, Kwong A, Timpson N, Koskinen S, Vrieze S, Scott LJ, Zhang H, Mahajan A, Veldink J, Peters U, Pato C, van Duijn CM, Gillies CE, Gandin I, Mezzavilla M, Gilly A, Cocca M, Traglia M, Angius A, Barrett JC, Boomsma D, Branham K, Breen G, Brummett CM, Busonero F, Campbell H, Chan A, Chen S, Chew E, Collins FS, Corbin LJ, Smith GD, Dedoussis G, Dorr M, Farmaki AE, Ferrucci L, Forer L, Fraser RM, Gabriel S, Levy S, Groop L, Harrison T, Hattersley A, Holmen OL, Hveem K, Kretzler M, Lee JC, McGue M, Meitinger T, Melzer D, Min JL, Mohlke KL, Vincent JB, Nauck M, Nickerson D, Palotie A, Pato M, Pirastu N, McInnis M, Richards JB, Sala C, Salomaa V, Schlessinger D, Schoenherr S, Slagboom PE, Small K, Spector T, Stambolian D, Tuke M, Tuomilehto J, Van den Berg LH, Van Rheenen W, Volker U, Wijmenga C, Toniolo D, Zeggini E, Gasparini P, Sampson MG, Wilson JF, Frayling T, de Bakker PI, Swertz MA, McCarroll S, Kooperberg C, Dekker A, Altshuler D, Willer C, Iacono W, Ripatti S, Soranzo N, Walter K, Swaroop A, Cucca F, Anderson CA, Myers RM, Boehnke M, McCarthy MI, Durbin R, Abecasis G, Marchini J (2016). A reference panel of 64,976 haplotypes for genotype imputation. Nature Genetics. DOI: 10.1038/ng.3643

Weissensteiner, H., Forer, L., Fuchsberger, C., Schöpf, B., Kloss-Brandstätter, A., Specht, G., … Schönherr, S. (2016). mtDNA-Server: next-generation sequencing data analysis of human mitochondrial DNA in the cloud. Nucleic Acids Research, gkw247.

Weissensteiner, H., Pacher, D., Kloss-Brandstätter, A., Forer, L., Specht, G., Bandelt, H.-J., … Schönherr, S. (2016). HaploGrep 2: mitochondrial haplogroup classification in the era of high-throughput sequencing. Nucleic Acids Research, gkw233.

Forer, L., Afgan, E., Weissensteiner, H., Davidovic, D., Specht, G., Kronenberg, F., & Schoenherr, S. (2016). Cloudflow - enabling faster biomedical pipelines with MapReduce and Spark Scalable Computing: Practice and Experience, 17(2), 103–114.

Collaborator

Sekula, P., Li, Y., Stanescu, H. C., Wuttke, M., Ekici, A. B., Bockenhauer, D., … others. (2016). Genetic risk variants for membranous nephropathy: extension of and association with other chronic kidney disease aetiologies. Nephrology Dialysis Transplantation, gfw001.

2015

Forer, L., Afgan, E., Weißensteiner, H., Davidovic, D., Specht, G., Kronenberg, F., & Schönherr, S. (2015). Cloudflow - A framework for MapReduce pipeline development in Biomedical Research. In P. Biljanovic, Z. Butkovic, K. Skala, B. Mikac, M. Cicin-Sain, V. Sruk, … A. Sokolic (Eds.), 38th International Convention on Information and Communication Technology, Electronics and Microelectronics, {MIPRO} 2015, Opatija, Croatia, May 25-29, 2015 (pp. 172–177). IEEE. http://doi.org/10.1109/MIPRO.2015.7160259

Kloss-Brandstätter, A., Weissensteiner, H., Erhart, G., Schäfer, G., Forer, L., Schönherr, S., … Kloss, F. R. (2015). Validation of Next-Generation Sequencing of Entire Mitochondrial Genomes and the Diversity of Mitochondrial DNA Mutations in Oral Squamous Cell Carcinoma. Plos One, 10, e0135643. http://doi.org/10.1371/journal.pone.0135643

Raschenberger, J., Kollerits, B., Titze, S., Köttgen, A., Bärthlein, B., Ekici, A. B., Schoenherr S., … others. (2015). Association of relative telomere length with cardiovascular disease in a large chronic kidney disease cohort: the GCKD study. Atherosclerosis, 242(2), 529–534.

Raschenberger, J., Kollerits, B., Titze, S., Köttgen, A., Bärthlein, B., Ekici, A. B., Schoenherr S., … others. (2015). Do telomeres have a higher plasticity than thought? Results from the German Chronic Kidney Disease (GCKD) study as a high-risk population. Experimental Gerontology, 72, 162–166.

Spjuth, O., Bongcam-Rudloff, E., Hernández, G. C., Forer, L., Giovacchini, M., Guimera, R. V., Schoenherr S., … others. (2015). Experiences with workflows for automating data-intensive bioinformatics. Biology Direct, 10(1), 1–12.

Collaborator

Titze, S., Schmid, M., Köttgen, A., Busch, M., Floege, J., Wanner, C., … others. (2015). Disease burden and risk profile in referred patients with moderate chronic kidney disease: composition of the German Chronic Kidney Disease (GCKD) cohort. Nephrology Dialysis Transplantation, 30(3), 441–451.

2014

Forer, L., Lipic, T., Schonherr, S., Weisensteiner, H., Davidovic, D., Kronenberg, F., & Afgan, E. (2014). Delivering bioinformatics MapReduce applications in the cloud. In 2014 37th International Convention on Information and Communication Technology, Electronics and Microelectronics (MIPRO) (pp. 373–377). IEEE. http://doi.org/10.1109/MIPRO.2014.6859593

Jing, J., Kielstein, J. T., Schultheiss, U. T., Sitter, T., Titze, S. I., Schaeffner, E. S., … others. (2014). Prevalence and correlates of gout in a large cohort of patients with chronic kidney disease: the German Chronic Kidney Disease (GCKD) study. Nephrology Dialysis Transplantation, gfu352.

Summerer, M., Horst, J., Erhart, G., Weißensteiner, H., Schönherr, S., Pacher, D., … others. (2014). Large-scale mitochondrial DNA analysis in Southeast Asia reveals evolutionary effects of cultural isolation in the multi-ethnic population of Myanmar. BMC Evolutionary Biology, 14(1), 17.

2013

Weissensteiner, H., Haun, M., Schönherr, S., Neuner, M., Forer, L., Specht, G., … Coassin, S. (2013). SNPflow: A Lightweight Application for the Processing, Storing and Automatic Quality Checking of Genotyping Assays. PloS One, 8(3), e59508. http://doi.org/10.1371/journal.pone.0059508

2012

Forer, L., Schönherr, S., Weißensteiner, H., Specht, G., Kronenberg, F., & Kloss-Brandstätter, A. (2012). Cloud Computing. In Computational Medicine (pp. 27–36). Springer.

Lamina, C., Forer, L., Schönherr, S., Kollerits, B., Ried, J. S., Gieger, C., … Kronenberg, F. (2012). Evaluation of gene-obesity interaction effects on cholesterol levels: a genetic predisposition score on HDL-cholesterol is modified by obesity. Atherosclerosis, 225(2), 363–9. http://doi.org/10.1016/j.atherosclerosis.2012.09.016

Schönherr, S., Forer, L., Weißensteiner, H., Kronenberg, F., Specht, G., & Kloss-Brandstätter, A. (2012). Cloudgene: a graphical execution platform for MapReduce programs on private and public clouds. BMC Bioinformatics, 13(1), 200. http://doi.org/10.1186/1471-2105-13-200

2011 Schönherr, S., Forer, L., Weißensteiner, H., Kronenberg, F., Specht, G., & Kloss-Brandstätter, A. (2011). A feedback guided interface for elastic computing. In Grundlagen von Datenbanken (pp. 109–114).

Talks

Title Place Date Comment
Bringing Hadoop into Bioinformatics with Cloudgene and CloudMan BOSC 2015, Dublin (IRE) 15/07/08 Link
mtDNA-Server: Highly distributed analysis pipeline for mtDNA next generation sequencing 5th Workshop of Genetic Epidemiology, Bad Aibling (GER) 15/03/25 Link
Cloudgene & Michigan Imputation Server Talk at the Bioinformatics Methods in Genomics Workshop, Zagreb (CRO) 15/03/02 Link
Hadoop pipelines for NGS analysis Workshop: e-Infrastructures for Massively Parallel Sequencing, Uppsala (SWE) 15/01/20 Link
Cloudgene in a nutshell University of Michigan, Center of Statistical Genetics, Ann Arbor (USA) 14/10/25 Link